|
| Status |
Public on Sep 29, 2011 |
| Title |
Breast tumor 103 |
| Sample type |
RNA |
| |
|
| Source name |
Human breast tumor
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Primary tumor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with QIAGEN RNAeasy Micro kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyzer.
|
| Label |
Biotin
|
| Label protocol |
250 ng of total RNA were converted to cDNA, followed by an in vitro transcription amplification step to generate biotin-labeled cRNA using the Ambion Illumina TotalPrep RNA Amplification Kit (Applied Biosystems, Austin, TX).
|
| |
|
| Hybridization protocol |
750 ng of labeled cRNA were applied to Illimuna whole-genome gene expression HumanRef-8 v2 BeadChips for a overnight hybridization at 58°C.
|
| Scan protocol |
Signal is developed with streptavidin-Cy3 and the BeadChip is scanned with the Illumina BeadArray Reader.
|
| Description |
raw data column: 1787466038_B
Breast tumor 103
|
| Data processing |
Image data were processed by BeadStudio software using background subtraction and Quantile normalization. The methods to adjust the normalized intensity values see MAQC Consortium’s description [PMID: 16964229]. Log2 expression ratio of a normalized intensity value to the average signal in all samples for each transcript was calculated.
|
| |
|
| Submission date |
Jul 07, 2009 |
| Last update date |
Sep 29, 2011 |
| Contact name |
Dong-Yu Wang |
| Organization name |
UHN-PMH-OCI
|
| Street address |
610 University Ave
|
| City |
Toronto |
| ZIP/Postal code |
M5G 2M9 |
| Country |
Canada |
| |
|
| Platform ID |
GPL6104 |
| Series (1) |
| GSE16987 |
A new gene expression signature, the ClinicoMolecular Triad Classification, may improve prediction and prognostication of breast cancer at the time of diagnosis |
|
